library(tidyverse)
library(readr)
library(dplyr)
library(ggplot2)
library(stringr)
library(cowplot)
library(RColorBrewer)
library(purrr)
library(shiny)
library(DT)
2´,3´-cyclic phosphate RNA-sequencing libraries were prepared from mouse macrophages: B6 (WT) and RNaseL KO. These cells were either mock infected or infected with WT MHV virus (from Volker), MHV mutated to inactivate ns2 (phosphodiesterase) activity, or MHV mutated to inactivate nsp15 (endoribonuclease) activity for 9 and 12 hours.
sample_info_table <- read_tsv("sample_info_exp2.txt", col_names = c("cell type", "virus type", "time"))
datatable(sample_info_table)
These libraries were processed to generate bedgraph files containing sites of 3´-cleavage and the associated dinucleotide in the MHV (+) strand RNA (mRNA) and (-) strand RNA (genomic).